Aliases for TYW1 Gene
Aliases for TYW1 Gene
- TRNA-YW Synthesizing Protein 1 Homolog 2 3 5
- Radical S-Adenosyl Methionine And Flavodoxin Domain-Containing Protein 1 3 4
- Radical S-Adenosyl Methionine And Flavodoxin Domains 1 2 3
- TRNA Wybutosine-Synthesizing Protein 1 Homolog 3 4
- RSAFD1 3 4
- S-Adenosyl-L-Methionine-Dependent TRNA 4-Demethylwyosine Synthase 3
- TRNA-YW Synthesizing Protein 1 Homolog A (S. Cerevisiae) 2
External Ids for TYW1 Gene
- HGNC: 25598
- Entrez Gene: 55253
- Ensembl: ENSG00000198874
- OMIM: 611243
- UniProtKB: Q9NV66
Previous HGNC Symbols for TYW1 Gene
- RSAFD1
Previous GeneCards Identifiers for TYW1 Gene
- GC07P066099
- GC07P066460
- GC07P062645
Summaries for TYW1 Gene
-
Wybutosine (yW) is a hypermodified guanosine found in phenylalanine tRNA adjacent to the anticodon that stabilizes codon-anticodon interactions in the ribosome. In yeast, the homolog of this gene is essential for the synthesis of wybutosine. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2015]
GeneCards Summary for TYW1 Gene
TYW1 (TRNA-YW Synthesizing Protein 1 Homolog) is a Protein Coding gene. Among its related pathways are Gene Expression and tRNA processing. Gene Ontology (GO) annotations related to this gene include oxidoreductase activity and 4 iron, 4 sulfur cluster binding. An important paralog of this gene is TYW1B.
UniProtKB/Swiss-Prot for TYW1 Gene
-
Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3-position adjacent to the anticodon of eukaryotic phenylalanine tRNA. Catalyzes the condensation of N-methylguanine with 2 carbon atoms from pyruvate to form the tricyclic 4-demethylwyosine, an intermediate in wybutosine biosynthesis (By similarity).
No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for TYW1 Gene
Genomics for TYW1 Gene
GeneHancer (GH) Regulatory Elements for TYW1 Gene
Promoters and enhancers for TYW1 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association
Download GeneHancer data dump
GeneHancers around TYW1 on UCSC Golden Path with GeneCards custom track
Regulatory Element Products
Genomic Locations for TYW1 Gene
Genomic Locations for TYW1 Gene
- chr7:66,995,173-67,239,520
- (GRCh38/hg38)
- Size:
- 244,348 bases
- Orientation:
- Plus strand
- chr7:66,460,160-66,704,501
- (GRCh37/hg19)
Genomic View for TYW1 Gene
Genes around TYW1 on UCSC Golden Path with GeneCards custom track
- Cytogenetic band:
-
- 7q11.21 by Ensembl
- 7q11.21 by Entrez Gene
- 7q11.21 by HGNC
TYW1 Gene in genomic location: bands according to
Ensembl, locations according to GeneLoc
(and/or Entrez Gene and/or Ensembl if different)
Genomic Neighborhood
• Exon Structure
• Gene Density
RefSeq DNA sequence for TYW1 Gene
Proteins for TYW1 Gene
-
Protein details for TYW1 Gene (UniProtKB/Swiss-Prot)
- Protein Symbol:
- Q9NV66-TYW1_HUMAN
- Recommended name:
- S-adenosyl-L-methionine-dependent tRNA 4-demethylwyosine synthase
- Protein Accession:
- Q9NV66
- Q6PJG8
- Q75MG8
- Q75MN3
- Q86V12
- Q8IVS7
- Q9H9C4
Protein attributes for TYW1 Gene
- Size:
- 732 amino acids
- Molecular mass:
- 83702 Da
- Cofactor:
- Name=[4Fe-4S] cluster; Xref=ChEBI:CHEBI:49883;
- Quaternary structure:
- No Data Available
- SequenceCaution:
-
- Sequence=AAH15591.1; Type=Frameshift; Positions=663; Evidence={ECO:0000305}; Sequence=BAB14307.1; Type=Erroneous initiation; Evidence={ECO:0000305};
Protein Expression for TYW1 Gene
Post-translational modifications for TYW1 Gene
No Post-translational modifications
Other Protein References for TYW1 Gene
- ENSEMBL proteins:
- REFSEQ proteins:
Antibody Products
-
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Protein Products
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-
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Abcam proteins for TYW1
Assay Products
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No data available for DME Specific Peptides for TYW1 Gene
Domains & Families for TYW1 Gene
Gene Families for TYW1 Gene
- Human Protein Atlas (HPA):
-
- Enzymes
- Predicted membrane proteins
Protein Domains for TYW1 Gene
Suggested Antigen Peptide Sequences for TYW1 Gene
- GenScript: Design optimal peptide antigens:
Graphical View of Domain Structure for InterPro Entry
Q9NV66- Family:
-
- Belongs to the TYW1 family.
Function for TYW1 Gene
Molecular function for TYW1 Gene
- UniProtKB/Swiss-Prot CatalyticActivity:
- N(1)-methylguanine(37) in tRNA(Phe) + pyruvate + S-adenosyl-L-methionine = 4-demethylwyosine(37) in tRNA(Phe) + L-methionine + 5-deoxyadenosine + CO(2) + H(2)O.
- UniProtKB/Swiss-Prot Function:
- Probable component of the wybutosine biosynthesis pathway. Wybutosine is a hyper modified guanosine with a tricyclic base found at the 3-position adjacent to the anticodon of eukaryotic phenylalanine tRNA. Catalyzes the condensation of N-methylguanine with 2 carbon atoms from pyruvate to form the tricyclic 4-demethylwyosine, an intermediate in wybutosine biosynthesis (By similarity).
Enzyme Numbers (IUBMB) for TYW1 Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0003824 | catalytic activity | IEA | -- |
| GO:0010181 | FMN binding | IEA | -- |
| GO:0016829 | lyase activity | IEA | -- |
| GO:0046872 | metal ion binding | IEA | -- |
| GO:0051536 | iron-sulfur cluster binding | IEA | -- |
Phenotypes for TYW1 Gene
- GenomeRNAi human phenotypes for TYW1:
Animal Model Products
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-
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CRISPR Products
-
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-
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miRNA for TYW1 Gene
- miRTarBase miRNAs that target TYW1
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Inhibitory RNA Products
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Clone Products
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-
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Cell Line Products
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No data available for Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for TYW1 Gene
Localization for TYW1 Gene
| Compartment | Confidence |
|---|---|
| nucleus | 3 |
| cytosol | 3 |
| plasma membrane | 1 |
| extracellular | 1 |
| peroxisome | 1 |
| endoplasmic reticulum | 1 |
| golgi apparatus | 1 |
- Nucleoli (2)
- Nucleus (2)
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0016020 | membrane | IEA | -- |
| GO:0016021 | integral component of membrane | IEA | -- |
No data available for Subcellular locations from UniProtKB/Swiss-Prot for TYW1 Gene
Pathways & Interactions for TYW1 Gene
| SuperPathway | Contained pathways | ||
|---|---|---|---|
| 1 | tRNA processing |
.55
|
|
| 2 | Gene Expression |
.48
|
|
Pathways by source for TYW1 Gene
2 BioSystems pathways for TYW1 Gene
4 Reactome pathways for TYW1 Gene
UniProtKB/Swiss-Prot Q9NV66-TYW1_HUMAN
- Pathway: tRNA modification; wybutosine-tRNA(Phe) biosynthesis.
Interacting Proteins for TYW1 Gene
| GO ID | Qualified GO term | Evidence | PubMed IDs |
|---|---|---|---|
| GO:0008033 | tRNA processing | IEA | -- |
| GO:0055114 | oxidation-reduction process | IEA | -- |
No data available for SIGNOR curated interactions for TYW1 Gene
Drugs & Compounds for TYW1 Gene
| Name | Status | Disease Links | Group | Role | Mechanism of Action | Clinical Trials |
|---|---|---|---|---|---|---|
| Flavin Mononucleotide | Pharma | 8 |
| Name | Synonyms | Role | CAS Number | PubChem IDs | PubMed IDs | |
|---|---|---|---|---|---|---|
| s-adenosylmethionine |
|
29908-03-0 |
|
Transcripts for TYW1 Gene
mRNA/cDNA for TYW1 Gene
- (3) REFSEQ mRNAs :
- (6) Additional mRNA sequences :
- (167) Selected AceView cDNA sequences:
- (7) Ensembl transcripts including schematic representations, and UCSC links where relevant :
Unigene Clusters for TYW1 Gene
CRISPR Products
-
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-
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-
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miRNA Products
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Inhibitory RNA Products
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Clone Products
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-
Vectors and viruses for ORF, Lenti, Retro, Adenovirus, AAV, and more
| ExUns: | 1 | ^ | 2 | ^ | 3 | ^ | 4 | ^ | 5 | ^ | 6 | ^ | 7 | ^ | 8 | ^ | 9 | ^ | 10a | · | 10b | ^ | 11 | ^ | 12 | ^ | 13a | · | 13b |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SP1: | |||||||||||||||||||||||||||||
| SP2: | |||||||||||||||||||||||||||||
| SP3: | |||||||||||||||||||||||||||||
| SP4: | - |
Expression for TYW1 Gene
This gene is overexpressed in Spleen (65.8).
Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for TYW1 Gene
NURSA nuclear receptor signaling pathways regulating expression of TYW1 Gene:
TYW1SOURCE GeneReport for Unigene cluster for TYW1 Gene:
Hs.520917Evidence on tissue expression from TISSUES for TYW1 Gene
- Intestine(4.2)
- Nervous system(2.4)
Primer Products
-
OriGene qPCR primer pairs for TYW1
-
OriGene qPCR primer pairs and template standards for TYW1
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No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for TYW1 Gene
Orthologs for TYW1 Gene
This gene was present in the common ancestor of eukaryotes.
| Organism | Taxonomy | Gene | Similarity | Type | Details |
|---|---|---|---|---|---|
| chimpanzee (Pan troglodytes) |
Mammalia | TYW1 33 |
|
||
| -- 34 |
|
OneToMany | |||
| dog (Canis familiaris) |
Mammalia | -- 34 |
|
OneToMany | |
| TYW1 33 |
|
||||
| cow (Bos Taurus) |
Mammalia | TYW1 33 34 |
|
||
| mouse (Mus musculus) |
Mammalia | Tyw1 33 16 34 |
|
||
| rat (Rattus norvegicus) |
Mammalia | Tyw1 33 |
|
||
| oppossum (Monodelphis domestica) |
Mammalia | -- 34 |
|
OneToMany | |
| platypus (Ornithorhynchus anatinus) |
Mammalia | -- 34 |
|
OneToMany | |
| chicken (Gallus gallus) |
Aves | TYW1 33 |
|
||
| -- 34 |
|
OneToMany | |||
| tropical clawed frog (Silurana tropicalis) |
Amphibia | tyw1 33 |
|
||
| Str.7207 33 |
|
||||
| zebrafish (Danio rerio) |
Actinopterygii | tyw1 33 34 |
|
||
| A. gosspyii yeast (Ashbya gossypii) |
Saccharomycetes | AGOS_AFL099W 33 |
|
||
| baker's yeast (Saccharomyces cerevisiae) |
Saccharomycetes | TYW1 33 34 36 |
|
||
| thale cress (Arabidopsis thaliana) |
eudicotyledons | AT1G75200 33 |
|
||
| soybean (Glycine max) |
eudicotyledons | Gma.17994 33 |
|
||
| rice (Oryza sativa) |
Liliopsida | Os03g0775300 33 |
|
||
| Os.33461 33 |
|
||||
| sea squirt (Ciona savignyi) |
Ascidiacea | CSA.8783 34 |
|
OneToMany | |
| fission yeast (Schizosaccharomyces pombe) |
Schizosaccharomycetes | SPCC1020.08 33 |
|
||
| bread mold (Neurospora crassa) |
Ascomycetes | NCU06633 33 |
|
||
| sea squirt (Ciona intestinalis) |
Ascidiacea | Cin.5664 33 |
|
- Species where no ortholog for TYW1 was found in the sources mined by GeneCards:
-
- Actinobacteria (Mycobacterium tuberculosis)
- African clawed frog (Xenopus laevis)
- African malaria mosquito (Anopheles gambiae)
- Alicante grape (Vitis vinifera)
- alpha proteobacteria (Wolbachia pipientis)
- amoeba (Dictyostelium discoideum)
- Archea (Pyrococcus horikoshii)
- barley (Hordeum vulgare)
- beta proteobacteria (Neisseria meningitidis)
- Chromalveolata (Phytophthora infestans)
- common water flea (Daphnia pulex)
- corn (Zea mays)
- E. coli (Escherichia coli)
- filamentous fungi (Aspergillus nidulans)
- Firmicute bacteria (Streptococcus pneumoniae)
- fruit fly (Drosophila melanogaster)
- green algae (Chlamydomonas reinhardtii)
- honey bee (Apis mellifera)
- K. lactis yeast (Kluyveromyces lactis)
- lizard (Anolis carolinensis)
- loblloly pine (Pinus taeda)
- malaria parasite (Plasmodium falciparum)
- medicago trunc (Medicago Truncatula)
- moss (Physcomitrella patens)
- orangutan (Pongo pygmaeus)
- pig (Sus scrofa)
- rainbow trout (Oncorhynchus mykiss)
- rice blast fungus (Magnaporthe grisea)
- schistosome parasite (Schistosoma mansoni)
- sea anemone (Nematostella vectensis)
- sea urchin (Strongylocentrotus purpuratus)
- sorghum (Sorghum bicolor)
- stem rust fungus (Puccinia graminis)
- sugarcane (Saccharum officinarum)
- tomato (Lycopersicon esculentum)
- toxoplasmosis (Toxoplasma gondii)
- Trichoplax (Trichoplax adhaerens)
- wheat (Triticum aestivum)
- worm (Caenorhabditis elegans)
Paralogs for TYW1 Gene
(1) SIMAP similar genes for TYW1 Gene using alignment to 2 proteins:
Pseudogenes.org Pseudogenes for TYW1 Gene
Variants for TYW1 Gene
| SNP ID | Clin | Chr 07 pos | Variation | AA Info | Type |
|---|---|---|---|---|---|
| rs113993990 | pathogenic, Shwachman syndrome, not provided | 66,995,298(+) | CC/C | upstream_transcript_variant | |
| rs28942099 | pathogenic, Shwachman syndrome | 66,995,394(+) | G/T | upstream_transcript_variant | |
| rs373730800 | pathogenic, Shwachman syndrome | 66,995,320(+) | T/C/G | upstream_transcript_variant | |
| rs772797192 | pathogenic, not provided | 66,995,405(+) | T/ | upstream_transcript_variant | |
| rs766277488 | likely-pathogenic, not provided | 66,995,377(+) | T/C | upstream_transcript_variant |
Residual Variation Intolerance Score:
76.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score:
10.17;
90.39% of all genes are more intolerant (likely to be disease-causing)
Additional Variant Information for TYW1 Gene
- SNPedia medical, phenotypic, and genealogical associations of SNPs for
- TYW1
No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for TYW1 Gene
Disorders for TYW1 Gene
Additional Disease Information for TYW1
- Genetic Association Database
- (GAD)
- Human Genome Epidemiology Navigator
- (HuGE)
- ATLAS of Genetics and Cytogenetics in Oncology and Haematology
No disorders were found for TYW1 Gene.
No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for TYW1 Gene
Publications for TYW1 Gene
- Personalized smoking cessation: interactions between nicotine dose, dependence and quit-success genotype score. (PMID: 20379614) Rose JE … Uhl GR (Molecular medicine (Cambridge, Mass.) 2010) 3 44 58
- Ribonucleome analysis identified enzyme genes responsible for wybutosine synthesis. (PMID: 17150819) Noma A … Suzuki T (Nucleic acids symposium series (2004) 2006) 2 3 58
- Discovery of a gene family critical to wyosine base formation in a subset of phenylalanine-specific transfer RNAs. (PMID: 16162496) Waas WF … Schimmel P (The Journal of biological chemistry 2005) 2 3 58
- Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
- The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
Products for TYW1 Gene
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Sources for TYW1 Gene
- (1) GeneCards
- (2) HGNC
- (3) EntrezGene
- (4) Swiss-Prot
- (5) Ensembl
- (6) OMIM
- (7) GeneLoc
- (8) Gene Wiki
- (9) UCSC
- (10) PhosphoSitePlus
- (11) GO
- (12) TrEMBL
- (13) InterPro
- (14) ProtoNet
- (15) Blocks
- (16) MGI
- (17) IUBMB
- (18) KEGG
- (19) MINT
- (20) STRING
- (21) IntAct
- (22) Novoseek
- (23) PharmGKB
- (24) DrugBank
- (25) HMDB
- (26) UniGene
- (27) AceView
- (28) ASD
- (29) ECgene
- (30) GeneAnnot
- (31) CGAP SAGE
- (32) SOURCE
- (33) HomoloGene
- (34) PanEnsembl
- (35) euGenes
- (36) SGD
- (37) FlyBase
- (38) WormBase
- (39) Pseudogene
- (40) DGV
- (41) dbSNP
- (42) GenAtlas
- (43) HGMD
- (44) GAD
- (45) BGMUT
- (46) HuGE
- (47) Atlas
- (48) Cell Signaling Technology
- (49) GenBank
- (50) H-invDB
- (51) HORDE
- (52) HUGE
- (53) IMGT
- (54) Leiden
- (55) miRBase
- (56) DME
- (57) OriGene
- (58) PubMed
- (59) R&D Systems
- (60) TGDB
- (61) Tocris
- (62) Abcam
- (63) Novus Biologicals
- (64) ProSpec
- (65) Sino Biological
- (66) GenScript
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- (68) Cloud-Clone Corp.
- (69) OCA
- (70) Proteopedia
- (71) MOPED
- (72) neXtProt
- (73) Reactome
- (74) GeneGo (Thomson Reuters)
- (75) fRNAdb
- (76) DISEASES
- (77) SIMAP
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